From 6c6a9915e5501663b6840b3e304388017d5ce6f9 Mon Sep 17 00:00:00 2001 From: Bryan Newbold Date: Fri, 26 Feb 2021 20:11:24 -0800 Subject: pipenv: switch to ES 7.x client libraries --- python/Pipfile | 4 +- python/Pipfile.lock | 392 ++++++++++++++++++++++++++++++++-------------------- 2 files changed, 245 insertions(+), 151 deletions(-) (limited to 'python') diff --git a/python/Pipfile b/python/Pipfile index fd9e9b6f..341214b0 100644 --- a/python/Pipfile +++ b/python/Pipfile @@ -48,8 +48,8 @@ bs4 = "*" python-magic = "*" pylatexenc = "*" pygal = "*" -elasticsearch-dsl = ">=6.0.0,<7.0.0" -elasticsearch = ">=6.0.0,<7.0.0" +elasticsearch-dsl = ">=7.0.0,<8.0.0" +elasticsearch = ">=7.0.0,<8.0.0" dateparser = ">=0.7" langdetect = "*" pathlib2 = "*" diff --git a/python/Pipfile.lock b/python/Pipfile.lock index f8b8d4cd..4d99125e 100644 --- a/python/Pipfile.lock +++ b/python/Pipfile.lock @@ -1,7 +1,7 @@ { "_meta": { "hash": { - "sha256": "006a028f743603065792eef33f6a7ba64070ca66346db1895ed3f0249d81535f" + "sha256": "4ad328def00d6b1231ff8d7e14bcc46aa2aac6ed34fdb9f1c27d2167ff760e86" }, "pipfile-spec": 6, "requires": { @@ -21,6 +21,7 @@ "sha256:31b2eced602aa8423c2aea9c76a724617ed67cf9513173fd3a4f03e3a929c7e6", "sha256:832aa3cde19744e49938b91fea06d69ecb9e649c93ba974535d08ad92164f700" ], + "markers": "python_version >= '2.7' and python_version not in '3.0, 3.1, 3.2, 3.3'", "version": "==20.3.0" }, "authlib": { @@ -68,51 +69,52 @@ }, "cffi": { "hashes": [ - "sha256:00a1ba5e2e95684448de9b89888ccd02c98d512064b4cb987d48f4b40aa0421e", - "sha256:00e28066507bfc3fe865a31f325c8391a1ac2916219340f87dfad602c3e48e5d", - "sha256:045d792900a75e8b1e1b0ab6787dd733a8190ffcf80e8c8ceb2fb10a29ff238a", - "sha256:0638c3ae1a0edfb77c6765d487fee624d2b1ee1bdfeffc1f0b58c64d149e7eec", - "sha256:105abaf8a6075dc96c1fe5ae7aae073f4696f2905fde6aeada4c9d2926752362", - "sha256:155136b51fd733fa94e1c2ea5211dcd4c8879869008fc811648f16541bf99668", - 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"sha256:fa5b2dee0e231fa4ad117be114251bdfe6afe39213bd629d43deb117b6a6c40a", + "sha256:fa7fb7973c622b9e725bee1db569d2c2ee64d2f9a089201c5e8185d482c7352d" + ], + "markers": "python_version >= '2.7' and python_version not in '3.0, 3.1, 3.2, 3.3, 3.4'", + "version": "==1.5.2" }, "mccabe": { "hashes": [ @@ -955,6 +1035,7 @@ "sha256:5652a9ac72209ed7df8d9c15daf4e1aa0e3d2ccd3c87f8265a0673cd9cbc9ced", "sha256:c5d6da9ca3ff65220c3bfd2a8db06d698f05d4d2b9be57e1deb2be5a45019713" ], + "markers": "python_version >= '3.5'", "version": "==8.7.0" }, "packaging": { @@ -962,6 +1043,7 @@ "sha256:5b327ac1320dc863dca72f4514ecc086f31186744b84a230374cc1fd776feae5", "sha256:67714da7f7bc052e064859c05c595155bd1ee9f69f76557e21f051443c20947a" ], + "markers": "python_version >= '2.7' and python_version not in '3.0, 3.1, 3.2, 3.3'", "version": "==20.9" }, "parso": { @@ -969,6 +1051,7 @@ "sha256:15b00182f472319383252c18d5913b69269590616c947747bc50bf4ac768f410", "sha256:8519430ad07087d4c997fda3a7918f7cfa27cb58972a8c89c2a0295a1c940e9e" ], + "markers": "python_version >= '3.6'", "version": "==0.8.1" }, "pexpect": { @@ -998,14 +1081,16 @@ "sha256:15b2acde666561e1298d71b523007ed7364de07029219b604cf808bfa1c765b0", "sha256:966c145cd83c96502c3c3868f50408687b38434af77734af1e9ca461a4081d2d" ], + "markers": "python_version >= '2.7' and python_version not in '3.0, 3.1, 3.2, 3.3'", "version": "==0.13.1" }, "prompt-toolkit": { "hashes": [ - "sha256:7e966747c18ececaec785699626b771c1ba8344c8d31759a1915d6b12fad6525", - "sha256:c96b30925025a7635471dc083ffb6af0cc67482a00611bd81aeaeeeb7e5a5e12" + "sha256:0fa02fa80363844a4ab4b8d6891f62dd0645ba672723130423ca4037b80c1974", + "sha256:62c811e46bd09130fb11ab759012a4ae385ce4fb2073442d1898867a824183bd" ], - "version": "==3.0.14" + "markers": "python_full_version >= '3.6.1'", + "version": "==3.0.16" }, "psycopg2": { "hashes": [ @@ -1025,6 +1110,7 @@ "sha256:f974c96fca34ae9e4f49839ba6b78addf0346777b46c4da27a7bf54f48d3057d", "sha256:fb23f6c71107c37fd667cb4ea363ddeb936b348bbd6449278eb92c189699f543" ], + "markers": "python_version >= '2.7' and python_version not in '3.0, 3.1, 3.2, 3.3'", "version": "==2.8.6" }, "ptyprocess": { @@ -1039,6 +1125,7 @@ "sha256:21b81bda15b66ef5e1a777a21c4dcd9c20ad3efd0b3f817e7a809035269e1bd3", "sha256:3b80836aa6d1feeaa108e046da6423ab8f6ceda6468545ae8d02d9d58d18818a" ], + "markers": "python_version >= '2.7' and python_version not in '3.0, 3.1, 3.2, 3.3'", "version": "==1.10.0" }, "pycodestyle": { @@ -1046,6 +1133,7 @@ "sha256:2295e7b2f6b5bd100585ebcb1f616591b652db8a741695b3d8f5d28bdc934367", "sha256:c58a7d2815e0e8d7972bf1803331fb0152f867bd89adf8a01dfd55085434192e" ], + "markers": "python_version >= '2.7' and python_version not in '3.0, 3.1, 3.2, 3.3'", "version": "==2.6.0" }, "pyflakes": { @@ -1053,28 +1141,31 @@ "sha256:0d94e0e05a19e57a99444b6ddcf9a6eb2e5c68d3ca1e98e90707af8152c90a92", "sha256:35b2d75ee967ea93b55750aa9edbbf72813e06a66ba54438df2cfac9e3c27fc8" ], + "markers": "python_version >= '2.7' and python_version not in '3.0, 3.1, 3.2, 3.3'", "version": "==2.2.0" }, "pygments": { "hashes": [ - "sha256:bc9591213a8f0e0ca1a5e68a479b4887fdc3e75d0774e5c71c31920c427de435", - "sha256:df49d09b498e83c1a73128295860250b0b7edd4c723a32e9bc0d295c7c2ec337" + "sha256:37a13ba168a02ac54cc5891a42b1caec333e59b66addb7fa633ea8a6d73445c0", + "sha256:b21b072d0ccdf29297a82a2363359d99623597b8a265b8081760e4d0f7153c88" ], - "version": "==2.7.4" + "markers": "python_version >= '3.5'", + "version": "==2.8.0" }, "pylint": { "hashes": [ - "sha256:bb4a908c9dadbc3aac18860550e870f58e1a02c9f2c204fdf5693d73be061210", - "sha256:bfe68f020f8a0fece830a22dd4d5dddb4ecc6137db04face4c3420a46a52239f" + "sha256:81ce108f6342421169ea039ff1f528208c99d2e5a9c4ca95cfc5291be6dfd982", + "sha256:a251b238db462b71d25948f940568bb5b3ae0e37dbaa05e10523f54f83e6cc7e" ], "index": "pypi", - "version": "==2.6.0" + "version": "==2.7.1" }, "pyparsing": { "hashes": [ "sha256:c203ec8783bf771a155b207279b9bccb8dea02d8f0c9e5f8ead507bc3246ecc1", "sha256:ef9d7589ef3c200abe66653d3f1ab1033c3c419ae9b9bdb1240a85b024efc88b" ], + "markers": "python_version >= '2.6' and python_version not in '3.0, 3.1, 3.2, 3.3'", "version": "==2.4.7" }, "pytest": { @@ -1087,19 +1178,19 @@ }, "pytest-cov": { "hashes": [ - "sha256:45ec2d5182f89a81fc3eb29e3d1ed3113b9e9a873bcddb2a71faaab066110191", - "sha256:47bd0ce14056fdd79f93e1713f88fad7bdcc583dcd7783da86ef2f085a0bb88e" + "sha256:359952d9d39b9f822d9d29324483e7ba04a3a17dd7d05aa6beb7ea01e359e5f7", + "sha256:bdb9fdb0b85a7cc825269a4c56b48ccaa5c7e365054b6038772c32ddcdc969da" ], "index": "pypi", - "version": "==2.10.1" + "version": "==2.11.1" }, "pytest-mock": { "hashes": [ - "sha256:c0fc979afac4aaba545cbd01e9c20736eb3fefb0a066558764b07d3de8f04ed3", - "sha256:c3981f5edee6c4d1942250a60d9b39d38d5585398de1bfce057f925bdda720f4" + "sha256:379b391cfad22422ea2e252bdfc008edd08509029bcde3c25b2c0bd741e0424e", + "sha256:a1e2aba6af9560d313c642dae7e00a2a12b022b80301d9d7fc8ec6858e1dd9fc" ], "index": "pypi", - "version": "==3.4.0" + "version": "==3.5.1" }, "pytest-pylint": { "hashes": [ @@ -1137,6 +1228,7 @@ "sha256:30639c035cdb23534cd4aa2dd52c3bf48f06e5f4a941509c8bafd8ce11080259", "sha256:8b74bedcbbbaca38ff6d7491d76f2b06b3592611af620f8426e82dddb04a5ced" ], + "markers": "python_version >= '2.7' and python_version not in '3.0, 3.1, 3.2, 3.3'", "version": "==1.15.0" }, "toml": { @@ -1152,6 +1244,7 @@ "sha256:178f4ce988f69189f7e523337a3e11d91c786ded9360174a3d9ca83e79bc5396", "sha256:69ff3f9d5351f31a7ad80443c2674b7099df13cc41fc5fa6e2f6d3b0330b0426" ], + "markers": "python_version >= '3.7'", "version": "==5.0.5" }, "urllib3": { @@ -1159,6 +1252,7 @@ "sha256:1b465e494e3e0d8939b50680403e3aedaa2bc434b7d5af64dfd3c958d7f5ae80", "sha256:de3eedaad74a2683334e282005cd8d7f22f4d55fa690a2a1020a416cb0a47e73" ], + "markers": "python_version >= '2.7' and python_version not in '3.0, 3.1, 3.2, 3.3, 3.4' and python_version < '4'", "version": "==1.26.3" }, "wcwidth": { -- cgit v1.2.3 From 913f1b845ea9763e301db924199c7db8356624aa Mon Sep 17 00:00:00 2001 From: Bryan Newbold Date: Fri, 26 Feb 2021 20:13:07 -0800 Subject: indexing: don't use document names --- python/fatcat_tools/workers/elasticsearch.py | 18 ++++-------------- 1 file changed, 4 insertions(+), 14 deletions(-) (limited to 'python') diff --git a/python/fatcat_tools/workers/elasticsearch.py b/python/fatcat_tools/workers/elasticsearch.py index 61854c31..4850bb0a 100644 --- a/python/fatcat_tools/workers/elasticsearch.py +++ b/python/fatcat_tools/workers/elasticsearch.py @@ -27,7 +27,6 @@ class ElasticsearchReleaseWorker(FatcatWorker): self.elasticsearch_backend = elasticsearch_backend self.elasticsearch_index = elasticsearch_index self.entity_type = ReleaseEntity - self.elasticsearch_document_name = "release" self.transform_func = release_to_elasticsearch self.api_host = api_host @@ -97,14 +96,8 @@ class ElasticsearchReleaseWorker(FatcatWorker): bulk_actions = [] for msg in batch: json_str = msg.value().decode('utf-8') - # HACK: work around a bug where container entities got published to - # release_v03 topic - if self.elasticsearch_document_name == "release": - entity_dict = json.loads(json_str) - if entity_dict.get('name') and not entity_dict.get('title'): - continue entity = entity_from_json(json_str, self.entity_type, api_client=ac) - if self.elasticsearch_document_name == "changelog": + if self.entity_type == ChangelogEntry: key = entity.index # might need to fetch from API if not (entity.editgroup and entity.editgroup.editor): @@ -117,11 +110,10 @@ class ElasticsearchReleaseWorker(FatcatWorker): })) bulk_actions.append(json.dumps( self.transform_func(entity))) - print("Upserting, eg, {} (of {} {} in elasticsearch)".format(key, len(batch), self.elasticsearch_document_name)) - elasticsearch_endpoint = "{}/{}/{}/_bulk".format( + print("Upserting, eg, {} (of {} {} in elasticsearch)".format(key, len(batch), self.entity_type)) + elasticsearch_endpoint = "{}/{}/_bulk".format( self.elasticsearch_backend, - self.elasticsearch_index, - self.elasticsearch_document_name) + self.elasticsearch_index) resp = requests.post(elasticsearch_endpoint, headers={"Content-Type": "application/x-ndjson"}, data="\n".join(bulk_actions) + "\n") @@ -152,7 +144,6 @@ class ElasticsearchContainerWorker(ElasticsearchReleaseWorker): # previous group got corrupted (by pykafka library?) self.consumer_group = "elasticsearch-updates3" self.entity_type = ContainerEntity - self.elasticsearch_document_name = "container" self.transform_func = container_to_elasticsearch @@ -174,5 +165,4 @@ class ElasticsearchChangelogWorker(ElasticsearchReleaseWorker): self.elasticsearch_backend = elasticsearch_backend self.elasticsearch_index = elasticsearch_index self.entity_type = ChangelogEntry - self.elasticsearch_document_name = "changelog" self.transform_func = changelog_to_elasticsearch -- cgit v1.2.3 From c23f050426c1422e84019fe60d4d67865b962f31 Mon Sep 17 00:00:00 2001 From: Bryan Newbold Date: Fri, 26 Feb 2021 20:13:25 -0800 Subject: web search: ES 6+7 compatibliity Based on the similar changes made in fatcat-scholar --- python/fatcat_web/search.py | 30 +++++++++++++++++++++--------- 1 file changed, 21 insertions(+), 9 deletions(-) (limited to 'python') diff --git a/python/fatcat_web/search.py b/python/fatcat_web/search.py index d7547cc8..0cdb604a 100644 --- a/python/fatcat_web/search.py +++ b/python/fatcat_web/search.py @@ -88,6 +88,16 @@ class SearchHits: query_time_ms: int results: List[Any] +def _hits_total_int(val: Any) -> int: + """ + Compatibility hack between ES 6.x and 7.x. In ES 6x, total is returned as + an int in many places, in ES 7 as a dict (JSON object) with 'value' key + """ + if isinstance(val, int): + return val + else: + return int(val['value']) + def results_to_dict(response: elasticsearch_dsl.response.Response) -> List[dict]: """ @@ -173,13 +183,14 @@ def do_container_search( offset = deep_page_limit search = search[offset : (offset + limit)] + search = search.params(track_total_hits=True) resp = wrap_es_execution(search) results = results_to_dict(resp) return SearchHits( count_returned=len(results), - count_found=int(resp.hits.total), + count_found=_hits_total_int(resp.hits.total), offset=offset, limit=limit, deep_page_limit=deep_page_limit, @@ -241,6 +252,7 @@ def do_release_search( offset = deep_page_limit search = search[offset : (offset + limit)] + search = search.params(track_total_hits=True) resp = wrap_es_execution(search) results = results_to_dict(resp) @@ -253,7 +265,7 @@ def do_release_search( return SearchHits( count_returned=len(results), - count_found=int(resp.hits.total), + count_found=_hits_total_int(resp.hits.total), offset=offset, limit=limit, deep_page_limit=deep_page_limit, @@ -310,7 +322,7 @@ def get_elastic_entity_stats() -> dict: resp = wrap_es_execution(search) stats['release'] = { - "total": int(resp.hits.total), + "total": _hits_total_int(resp.hits.total), "refs_total": int(resp.aggregations.release_ref_count.value), } @@ -344,7 +356,7 @@ def get_elastic_entity_stats() -> dict: resp = wrap_es_execution(search) buckets = resp.aggregations.paper_like.buckets stats['papers'] = { - 'total': resp.hits.total, + 'total': _hits_total_int(resp.hits.total), 'in_web': buckets.in_web.doc_count, 'is_oa': buckets.is_oa.doc_count, 'in_kbart': buckets.in_kbart.doc_count, @@ -363,7 +375,7 @@ def get_elastic_entity_stats() -> dict: search = search.params(request_cache=True) resp = wrap_es_execution(search) stats['container'] = { - "total": resp.hits.total, + "total": _hits_total_int(resp.hits.total), } return stats @@ -398,7 +410,7 @@ def get_elastic_search_coverage(query: ReleaseQuery) -> dict: resp = wrap_es_execution(search) preservation_bucket = agg_to_dict(resp.aggregations.preservation) - preservation_bucket['total'] = resp.hits.total + preservation_bucket['total'] = _hits_total_int(resp.hits.total) for k in ('bright', 'dark', 'shadows_only', 'none'): if not k in preservation_bucket: preservation_bucket[k] = 0 @@ -406,7 +418,7 @@ def get_elastic_search_coverage(query: ReleaseQuery) -> dict: preservation_bucket['none'] += preservation_bucket['shadows_only'] preservation_bucket['shadows_only'] = 0 stats = { - 'total': resp.hits.total, + 'total': _hits_total_int(resp.hits.total), 'preservation': preservation_bucket, } @@ -463,7 +475,7 @@ def get_elastic_container_stats(ident, issnl=None): container_stats = resp.aggregations.container_stats.buckets preservation_bucket = agg_to_dict(resp.aggregations.preservation) - preservation_bucket['total'] = resp.hits.total + preservation_bucket['total'] = _hits_total_int(resp.hits.total) for k in ('bright', 'dark', 'shadows_only', 'none'): if not k in preservation_bucket: preservation_bucket[k] = 0 @@ -474,7 +486,7 @@ def get_elastic_container_stats(ident, issnl=None): stats = { 'ident': ident, 'issnl': issnl, - 'total': resp.hits.total, + 'total': _hits_total_int(resp.hits.total), 'in_web': container_stats['in_web']['doc_count'], 'in_kbart': container_stats['in_kbart']['doc_count'], 'is_preserved': container_stats['is_preserved']['doc_count'], -- cgit v1.2.3